Literature DB >> 20463735

Molecular robots guided by prescriptive landscapes.

Kyle Lund1, Anthony J Manzo, Nadine Dabby, Nicole Michelotti, Alexander Johnson-Buck, Jeanette Nangreave, Steven Taylor, Renjun Pei, Milan N Stojanovic, Nils G Walter, Erik Winfree, Hao Yan.   

Abstract

Traditional robots rely for their function on computing, to store internal representations of their goals and environment and to coordinate sensing and any actuation of components required in response. Moving robotics to the single-molecule level is possible in principle, but requires facing the limited ability of individual molecules to store complex information and programs. One strategy to overcome this problem is to use systems that can obtain complex behaviour from the interaction of simple robots with their environment. A first step in this direction was the development of DNA walkers, which have developed from being non-autonomous to being capable of directed but brief motion on one-dimensional tracks. Here we demonstrate that previously developed random walkers-so-called molecular spiders that comprise a streptavidin molecule as an inert 'body' and three deoxyribozymes as catalytic 'legs'-show elementary robotic behaviour when interacting with a precisely defined environment. Single-molecule microscopy observations confirm that such walkers achieve directional movement by sensing and modifying tracks of substrate molecules laid out on a two-dimensional DNA origami landscape. When using appropriately designed DNA origami, the molecular spiders autonomously carry out sequences of actions such as 'start', 'follow', 'turn' and 'stop'. We anticipate that this strategy will result in more complex robotic behaviour at the molecular level if additional control mechanisms are incorporated. One example might be interactions between multiple molecular robots leading to collective behaviour; another might be the ability to read and transform secondary cues on the DNA origami landscape as a means of implementing Turing-universal algorithmic behaviour.

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Year:  2010        PMID: 20463735      PMCID: PMC2907518          DOI: 10.1038/nature09012

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  21 in total

1.  A DNA-fuelled molecular machine made of DNA.

Authors:  B Yurke; A J Turberfield; A P Mills; F C Simmel; J L Neumann
Journal:  Nature       Date:  2000-08-10       Impact factor: 49.962

2.  A deoxyribozyme-based molecular automaton.

Authors:  Milan N Stojanovic; Darko Stefanovic
Journal:  Nat Biotechnol       Date:  2003-08-17       Impact factor: 54.908

3.  A synthetic DNA walker for molecular transport.

Authors:  Jong-Shik Shin; Niles A Pierce
Journal:  J Am Chem Soc       Date:  2004-09-08       Impact factor: 15.419

4.  Single molecule high-resolution colocalization of Cy3 and Cy5 attached to macromolecules measures intramolecular distances through time.

Authors:  L Stirling Churchman; Zeynep Okten; Ronald S Rock; John F Dawson; James A Spudich
Journal:  Proc Natl Acad Sci U S A       Date:  2005-01-24       Impact factor: 11.205

5.  A free-running DNA motor powered by a nicking enzyme.

Authors:  Jonathan Bath; Simon J Green; Andrew J Turberfield
Journal:  Angew Chem Int Ed Engl       Date:  2005-07-11       Impact factor: 15.336

6.  A DNAzyme that walks processively and autonomously along a one-dimensional track.

Authors:  Ye Tian; Yu He; Yi Chen; Peng Yin; Chengde Mao
Journal:  Angew Chem Int Ed Engl       Date:  2005-07-11       Impact factor: 15.336

7.  A general purpose RNA-cleaving DNA enzyme.

Authors:  S W Santoro; G F Joyce
Journal:  Proc Natl Acad Sci U S A       Date:  1997-04-29       Impact factor: 11.205

8.  Molecular computation of solutions to combinatorial problems.

Authors:  L M Adleman
Journal:  Science       Date:  1994-11-11       Impact factor: 47.728

9.  In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme.

Authors:  J Li; W Zheng; A H Kwon; Y Lu
Journal:  Nucleic Acids Res       Date:  2000-01-15       Impact factor: 16.971

10.  Interstitial collagenase is a Brownian ratchet driven by proteolysis of collagen.

Authors:  Saveez Saffarian; Ivan E Collier; Barry L Marmer; Elliot L Elson; Gregory Goldberg
Journal:  Science       Date:  2004-10-01       Impact factor: 47.728

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  151 in total

Review 1.  Beyond DNA origami: the unfolding prospects of nucleic acid nanotechnology.

Authors:  Nicole Michelotti; Alexander Johnson-Buck; Anthony J Manzo; Nils G Walter
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2011-11-30

2.  RNA nanotechnology: inspired by DNA.

Authors:  Michael Famulok; Damian Ackermann
Journal:  Nat Nanotechnol       Date:  2010-09       Impact factor: 39.213

3.  Nanotechnology: Molecular robots on the move.

Authors:  Lloyd M Smith
Journal:  Nature       Date:  2010-05-13       Impact factor: 49.962

4.  Robotics on the nanoscale.

Authors:  Allison Doerr
Journal:  Nat Methods       Date:  2010-07       Impact factor: 28.547

5.  DNA nanotechnology: steps towards automated synthesis.

Authors:  Alexandru Rotaru; Kurt V Gothelf
Journal:  Nat Nanotechnol       Date:  2010-10-10       Impact factor: 39.213

6.  Interconnecting gold islands with DNA origami nanotubes.

Authors:  Baoquan Ding; Hao Wu; Wei Xu; Zhao Zhao; Yan Liu; Hongbin Yu; Hao Yan
Journal:  Nano Lett       Date:  2010-11-11       Impact factor: 11.189

Review 7.  Spatially-interactive biomolecular networks organized by nucleic acid nanostructures.

Authors:  Jinglin Fu; Minghui Liu; Yan Liu; Hao Yan
Journal:  Acc Chem Res       Date:  2012-05-29       Impact factor: 22.384

Review 8.  Artificial Molecular Machines.

Authors:  Sundus Erbas-Cakmak; David A Leigh; Charlie T McTernan; Alina L Nussbaumer
Journal:  Chem Rev       Date:  2015-09-08       Impact factor: 60.622

Review 9.  DNA nanotechnology from the test tube to the cell.

Authors:  Yuan-Jyue Chen; Benjamin Groves; Richard A Muscat; Georg Seelig
Journal:  Nat Nanotechnol       Date:  2015-09       Impact factor: 39.213

10.  Light sensitization of DNA nanostructures via incorporation of photo-cleavable spacers.

Authors:  Richie E Kohman; Xue Han
Journal:  Chem Commun (Camb)       Date:  2015-04-04       Impact factor: 6.222

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